genome.fa.s8.2.7.7.80.10.50.1000.92.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: At_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   

This is table  92  of  279  ( 33431 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30041592--30041625	4	8.5	4	100	0	68	0	23	0	76	0.79
30044804--30044845	19	2.1	21	86	8	61	57	4	7	30	1.47
30048831--30048869	15	2.5	16	88	12	55	38	2	0	58	1.12
30048831--30048869	8	5.0	8	90	9	55	38	2	0	58	1.12
30051344--30051398	15	3.3	18	70	19	64	25	12	3	58	1.51
30051354--30051406	16	3.2	17	73	10	65	22	15	3	58	1.53
30054875--30055053	62	2.9	62	82	0	225	26	24	26	23	2.00
30062731--30062838	30	3.6	30	85	0	117	34	12	18	35	1.88
30067554--30067623	26	2.5	27	76	17	63	41	5	1	51	1.34
30067561--30067627	29	2.3	30	78	16	79	41	4	1	52	1.31
30073382--30073492	34	3.3	34	81	5	134	37	6	19	36	1.78
30073563--30073700	59	2.3	61	79	8	167	32	13	26	27	1.93
30078275--30078343	15	4.6	15	83	0	84	11	17	13	57	1.64
30078266--30078353	30	3.0	30	81	8	99	10	17	15	56	1.66
30088092--30088140	25	2.0	25	87	0	71	26	14	22	36	1.92
30091315--30091422	34	3.2	34	86	0	144	37	5	20	37	1.76
30091495--30091632	59	2.3	61	77	8	158	33	13	26	27	1.93
30094880--30095072	106	1.8	106	82	6	248	48	11	6	33	1.65
30095118--30095152	18	1.9	18	88	0	52	74	8	0	17	1.06
30095238--30095269	15	2.1	15	94	0	55	75	0	3	21	0.95
30095320--30095381	19	3.4	18	75	12	65	54	4	1	38	1.31
30095552--30095586	18	1.9	18	88	0	52	74	8	0	17	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30095739--30095800	19	3.4	18	75	12	65	54	4	1	38	1.31
30095839--30095874	7	5.1	7	93	0	54	52	0	2	44	1.15
30095981--30096068	17	4.7	19	68	20	62	61	3	2	32	1.25
30096091--30096133	18	2.4	18	84	3	52	65	0	0	34	0.93
30100343--30100387	15	3.3	14	87	12	58	64	0	8	26	1.23
30100363--30100395	3	11.0	3	93	0	57	63	0	3	33	1.10
30100350--30100391	15	3.0	15	90	10	63	61	0	7	30	1.22
30100683--30100800	11	10.1	11	66	20	53	54	5	5	34	1.47
30100760--30100806	21	2.2	21	82	10	60	61	4	4	29	1.34
30103081--30103512	174	2.5	171	81	9	509	19	22	21	35	1.96
30103075--30103496	86	4.8	87	80	11	429	19	23	21	36	1.95
30103132--30103464	44	7.7	43	71	11	216	18	22	22	35	1.96
30103583--30103706	64	1.9	64	90	0	194	37	12	17	32	1.88
30116017--30116055	10	4.0	10	86	6	53	82	5	0	12	0.83
30116017--30116051	9	3.8	9	92	3	52	85	2	0	11	0.69
30116017--30116054	19	2.0	19	89	0	58	84	2	0	13	0.73
30116895--30117028	3	44.0	3	65	14	51	32	6	2	58	1.37
30116895--30117028	21	6.4	21	66	16	64	32	6	2	58	1.37
30116943--30117028	15	5.7	15	69	10	59	33	3	2	60	1.26
30117132--30117177	20	2.3	20	84	0	56	34	2	2	60	1.21
30117198--30117227	14	2.1	14	100	0	60	33	6	0	60	1.23
30117302--30117349	25	2.0	24	84	12	62	31	0	4	64	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30117389--30117449	24	2.7	22	80	7	59	37	6	4	50	1.50
30117515--30117606	25	3.5	25	79	7	94	31	7	5	55	1.51
30129838--30130252	163	2.4	168	81	10	431	29	17	18	35	1.93
30130005--30130382	85	4.5	85	77	12	345	27	16	20	34	1.95
30130178--30130326	76	2.0	75	84	4	192	30	14	20	34	1.93
30130094--30130388	161	1.8	164	82	3	382	28	16	21	33	1.95
30132015--30132072	27	2.1	27	83	0	71	31	10	1	56	1.43
30132015--30132098	27	3.3	26	75	20	70	30	9	1	58	1.38
30132282--30132361	24	3.1	24	73	16	63	28	7	3	60	1.42
30132300--30132381	24	3.3	23	77	14	58	28	7	3	60	1.40
30132582--30132608	14	1.9	14	100	0	54	37	11	0	51	1.37
30132605--30132737	64	2.2	58	79	12	135	34	6	6	53	1.50
30132668--30132725	23	2.6	23	83	8	66	34	3	5	56	1.38
30132591--30132674	23	3.3	23	71	17	53	34	9	4	51	1.56
30132860--30133054	25	8.2	25	67	19	105	31	8	5	54	1.53
30136337--30136384	20	2.5	20	89	3	71	68	0	4	27	1.07
30137293--30137346	23	2.3	23	96	3	99	33	24	7	35	1.83
30138929--30138979	16	3.2	16	80	5	59	41	1	25	31	1.67
30139144--30139264	60	2.1	59	89	4	183	52	2	0	44	1.20
30139154--30139267	57	1.9	59	89	5	178	52	3	0	42	1.24
30164723--30164773	20	2.5	20	78	6	59	52	0	5	41	1.25
30167738--30167780	17	2.4	17	84	7	50	67	2	4	25	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30167754--30167841	19	4.7	19	72	8	65	63	3	3	29	1.27
30168178--30168342	86	1.9	86	82	3	208	33	7	17	41	1.79
30170826--30170900	31	2.5	31	91	2	116	44	13	13	29	1.82
30175973--30176024	24	2.2	25	80	16	65	59	0	9	30	1.29
30180409--30180456	3	16.3	3	83	12	64	64	0	35	0	0.94
30180410--30180452	22	2.0	21	90	4	68	67	0	32	0	0.91
30180409--30180455	25	1.9	24	91	4	76	65	0	34	0	0.93
30180924--30181006	16	5.1	16	72	5	60	68	3	6	21	1.27
30183477--30183591	33	3.5	32	82	4	133	25	41	15	17	1.88
30189392--30189477	45	2.0	42	84	6	109	50	32	2	15	1.57
30190567--30190612	3	15.0	3	95	4	83	32	0	2	65	1.05
30190750--30190883	3	46.7	3	69	14	50	34	7	1	56	1.36
30190750--30190787	19	2.0	20	89	5	60	28	7	0	63	1.23
30190790--30190832	16	2.7	15	86	10	59	32	6	0	60	1.23
30193681--30193802	64	1.9	64	83	5	158	17	23	3	55	1.56
30194999--30195040	22	1.9	22	85	9	59	16	2	11	69	1.29
30195231--30195264	16	2.1	16	89	10	52	35	8	0	55	1.31
30196648--30196677	4	7.5	4	92	0	51	73	0	3	23	0.98
30196699--30196750	28	1.9	28	81	14	65	65	7	11	15	1.46
30196861--30196995	62	2.2	62	95	0	243	43	6	17	32	1.74
30197420--30197468	21	2.2	23	85	7	66	61	2	2	34	1.19
30199549--30199747	43	4.6	44	83	3	154	20	19	22	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30199592--30199748	43	3.7	43	89	0	215	20	17	22	38	1.93
30199500--30199794	86	3.4	86	74	6	256	20	20	21	37	1.95
30202701--30202879	90	2.0	90	97	0	340	20	26	20	32	1.97
30203723--30203914	96	2.0	96	98	0	375	27	20	23	28	1.99
30206582--30206609	11	2.5	11	100	0	56	21	35	0	42	1.53
30212069--30212098	4	7.5	4	92	0	51	73	0	3	23	0.98
30212563--30212601	19	2.1	19	90	9	62	51	5	2	41	1.38
30212798--30212846	21	2.2	23	85	7	66	61	2	2	34	1.19
30213829--30213899	32	2.2	32	79	0	79	14	11	16	57	1.64
30216256--30216365	26	4.2	26	94	2	177	33	4	25	36	1.76
30217817--30217876	26	2.2	26	82	5	66	31	23	13	31	1.93
30217984--30218050	27	2.5	27	82	0	80	17	20	23	37	1.94
30233918--30234006	43	2.1	43	93	0	151	41	8	12	37	1.74
30235721--30235857	37	3.5	39	72	13	104	31	27	18	23	1.97
30236430--30236559	42	3.3	41	68	22	123	27	22	5	44	1.74
30236424--30236589	77	2.2	77	98	0	323	28	21	4	45	1.70
30237875--30237924	26	1.9	26	84	8	66	24	20	28	28	1.99
30237963--30238066	28	3.7	28	70	12	86	25	24	19	30	1.98
30238097--30238174	36	2.2	36	83	4	104	29	16	19	34	1.94
30240023--30240066	17	2.4	19	88	7	65	38	0	0	61	0.96
30242165--30242568	226	1.8	217	81	5	504	30	5	15	47	1.69
30253554--30253655	41	2.5	40	84	7	127	37	14	16	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30254004--30254041	5	7.6	5	100	0	76	60	39	0	0	0.97
30254099--30254137	19	2.1	19	95	0	69	38	28	15	17	1.91
30254663--30254701	19	2.0	20	85	5	53	43	7	5	43	1.55
30258291--30258402	24	4.6	24	75	4	91	25	16	31	25	1.97
30263724--30263761	14	2.7	14	95	0	67	47	13	2	36	1.56
30265635--30265679	19	2.3	20	81	14	58	37	2	6	53	1.40
30267461--30267496	18	2.1	16	90	10	54	25	0	2	72	0.98
30269942--30270012	36	2.0	36	81	8	83	56	2	1	39	1.23
30271053--30271094	19	2.2	20	82	4	50	45	0	0	54	0.99
30273366--30273541	62	2.8	62	81	4	210	30	26	16	26	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279